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neio.obo
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format-version: 1.2
data-version: https://w3id.org/neural-electronic-interface-ontology/neio/releases/2024-06-25/neio.owl
idspace: dc http://purl.org/dc/elements/1.1/
idspace: foaf http://xmlns.com/foaf/0.1/
idspace: neural-electronic-interface-ontology https://w3id.org/neural-electronic-interface-ontology/
idspace: oboInOwl http://www.geneontology.org/formats/oboInOwl#
idspace: protege http://protege.stanford.edu/plugins/owl/protege#
idspace: swrl http://www.w3.org/2003/11/swrl#
idspace: swrlb http://www.w3.org/2003/11/swrlb#
idspace: terms http://purl.org/dc/terms/
ontology: https://w3id.org/neural-electronic-interface-ontology/neio.owl
property_value: foaf:homepage "https://github.com/uflcod/neural-electronic-interface-ontology" xsd:string
property_value: owl:versionInfo "2024-06-25" xsd:string
property_value: terms:contributor https://orcid.org/0000-0001-7387-7944
property_value: terms:contributor https://orcid.org/0000-0001-9990-8331
property_value: terms:contributor https://orcid.org/0000-0002-1118-1738
property_value: terms:contributor https://orcid.org/0000-0002-5260-9315
property_value: terms:contributor https://orcid.org/0009-0006-7251-3026
property_value: terms:contributor https://orcid.org/0009-0008-8150-9779
property_value: terms:contributor https://orcid.org/0009-0009-9778-4641
property_value: terms:created "2023-09-17" xsd:string
property_value: terms:creator https://orcid.org/0000-0001-9625-1899
property_value: terms:description "The Neural Electronic Interface Ontology represents the types of devices used to interface with the central nervous system to enhance (or augment) stimuli from a subject's external environment, the conditions under which these devices should be employed, the assessment of a subject's sensory ability, and the metrics for evaluating the performance." xsd:string
property_value: terms:title "Neural Electronic Interface Ontology" xsd:string
[Term]
id: BFO:0000001
name: entity
property_value: BFO:0000179 "entity" xsd:string
property_value: BFO:0000180 "Entity" xsd:string
property_value: IAO:0000112 "Julius Caesar" xsd:string
property_value: IAO:0000112 "the Second World War" xsd:string
property_value: IAO:0000112 "Verdi’s Requiem" xsd:string
property_value: IAO:0000112 "your body mass index" xsd:string
property_value: IAO:0000116 "BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81" xsd:string
property_value: IAO:0000116 "Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000004", comment="per discussion with Barry Smith", seeAlso="http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf"}
property_value: IAO:0000600 "An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/001-001"}
property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl
[Term]
id: BFO:0000002
name: continuant
def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." []
is_a: BFO:0000001 ! entity
disjoint_from: BFO:0000003 ! occurrent
relationship: part_of BFO:0000002 {all_only="true"} ! continuant
property_value: BFO:0000179 "continuant" xsd:string
property_value: BFO:0000180 "Continuant" xsd:string
property_value: IAO:0000111 "continuant" xsd:string
property_value: IAO:0000116 "BFO 2 Reference: Continuant entities are entities which can be sliced to yield parts only along the spatial dimension, yielding for example the parts of your table which we call its legs, its top, its nails. ‘My desk stretches from the window to the door. It has spatial parts, and can be sliced (in space) in two. With respect to time, however, a thing is a continuant.’ [60, p. 240" xsd:string
property_value: IAO:0000116 "Continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example, in an expansion involving bringing in some of Ceuster's other portions of reality, questions are raised as to whether universals are continuants" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000007"}
property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl
property_value: IAO:0000600 "A continuant is an entity that persists, endures, or continues to exist through time while maintaining its identity. (axiom label in BFO2 Reference: [008-002])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/008-002"}
property_value: IAO:0000601 "if b is a continuant and if, for some t, c has_continuant_part b at t, then c is a continuant. (axiom label in BFO2 Reference: [126-001])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/126-001"}
property_value: IAO:0000601 "if b is a continuant and if, for some t, cis continuant_part of b at t, then c is a continuant. (axiom label in BFO2 Reference: [009-002])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/009-002"}
property_value: IAO:0000601 "if b is a material entity, then there is some temporal interval (referred to below as a one-dimensional temporal region) during which b exists. (axiom label in BFO2 Reference: [011-002])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/011-002"}
property_value: IAO:0000602 "(forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/009-002"}
property_value: IAO:0000602 "(forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/126-001"}
property_value: IAO:0000602 "(forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/008-002"}
property_value: IAO:0000602 "(forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/011-002"}
property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl
[Term]
id: BFO:0000003
name: occurrent
def: "An entity that has temporal parts and that happens, unfolds or develops through time." []
is_a: BFO:0000001 ! entity
relationship: part_of BFO:0000003 {all_only="true"} ! occurrent
property_value: BFO:0000179 "occurrent" xsd:string
property_value: BFO:0000180 "Occurrent" xsd:string
property_value: IAO:0000116 "BFO 2 Reference: every occurrent that is not a temporal or spatiotemporal region is s-dependent on some independent continuant that is not a spatial region" xsd:string
property_value: IAO:0000116 "BFO 2 Reference: s-dependence obtains between every process and its participants in the sense that, as a matter of necessity, this process could not have existed unless these or those participants existed also. A process may have a succession of participants at different phases of its unfolding. Thus there may be different players on the field at different times during the course of a football game; but the process which is the entire game s-depends_on all of these players nonetheless. Some temporal parts of this process will s-depend_on on only some of the players." xsd:string
property_value: IAO:0000116 "Occurrent doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the sum of a process and the process boundary of another process." xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000006", comment="per discussion with Barry Smith"}
property_value: IAO:0000116 "Simons uses different terminology for relations of occurrents to regions: Denote the spatio-temporal location of a given occurrent e by 'spn[e]' and call this region its span. We may say an occurrent is at its span, in any larger region, and covers any smaller region. Now suppose we have fixed a frame of reference so that we can speak not merely of spatio-temporal but also of spatial regions (places) and temporal regions (times). The spread of an occurrent, (relative to a frame of reference) is the space it exactly occupies, and its spell is likewise the time it exactly occupies. We write 'spr[e]' and `spl[e]' respectively for the spread and spell of e, omitting mention of the frame." xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000012"}
property_value: IAO:0000600 "An occurrent is an entity that unfolds itself in time or it is the instantaneous boundary of such an entity (for example a beginning or an ending) or it is a temporal or spatiotemporal region which such an entity occupies_temporal_region or occupies_spatiotemporal_region. (axiom label in BFO2 Reference: [077-002])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/077-002"}
property_value: IAO:0000601 "b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/079-001"}
property_value: IAO:0000601 "Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/108-001"}
property_value: IAO:0000602 "(forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/108-001"}
property_value: IAO:0000602 "(forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/079-001"}
property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl
[Term]
id: BFO:0000004
name: independent continuant
def: "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." []
def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/017-002"}
comment: A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything.
is_a: BFO:0000002 ! continuant
disjoint_from: BFO:0000020 ! specifically dependent continuant
relationship: part_of BFO:0000004 {all_only="true"} ! independent continuant
property_value: BFO:0000179 "ic" xsd:string
property_value: BFO:0000180 "IndependentContinuant" xsd:string
property_value: IAO:0000112 "a chair" xsd:string
property_value: IAO:0000112 "a heart" xsd:string
property_value: IAO:0000112 "a leg" xsd:string
property_value: IAO:0000112 "a molecule" xsd:string
property_value: IAO:0000112 "a spatial region" xsd:string
property_value: IAO:0000112 "an atom" xsd:string
property_value: IAO:0000112 "an orchestra." xsd:string
property_value: IAO:0000112 "an organism" xsd:string
property_value: IAO:0000112 "the bottom right portion of a human torso" xsd:string
property_value: IAO:0000112 "the interior of your mouth" xsd:string
property_value: IAO:0000601 "For any independent continuant b and any time t there is some spatial region r such that b is located_in r at t. (axiom label in BFO2 Reference: [134-001])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/134-001"}
property_value: IAO:0000601 "For every independent continuant b and time t during the region of time spanned by its life, there are entities which s-depends_on b during t. (axiom label in BFO2 Reference: [018-002])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/018-002"}
property_value: IAO:0000602 "(forall (x t) (if (and (IndependentContinuant x) (existsAt x t)) (exists (y) (and (Entity y) (specificallyDependsOnAt y x t))))) // axiom label in BFO2 CLIF: [018-002] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/018-002"}
property_value: IAO:0000602 "(forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/134-001"}
property_value: IAO:0000602 "(iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/017-002"}
property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl
[Term]
id: BFO:0000015
name: process
def: "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" [] {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/083-003"}
comment: An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t.
is_a: BFO:0000003 ! occurrent
property_value: BFO:0000179 "process" xsd:string
property_value: BFO:0000180 "Process" xsd:string
property_value: IAO:0000112 "a process of cell-division, \\ a beating of the heart" xsd:string
property_value: IAO:0000112 "a process of meiosis" xsd:string
property_value: IAO:0000112 "a process of sleeping" xsd:string
property_value: IAO:0000112 "the course of a disease" xsd:string
property_value: IAO:0000112 "the flight of a bird" xsd:string
property_value: IAO:0000112 "the life of an organism" xsd:string
property_value: IAO:0000112 "your process of aging." xsd:string
property_value: IAO:0000116 "BFO 2 Reference: The realm of occurrents is less pervasively marked by the presence of natural units than is the case in the realm of independent continuants. Thus there is here no counterpart of ‘object’. In BFO 1.0 ‘process’ served as such a counterpart. In BFO 2.0 ‘process’ is, rather, the occurrent counterpart of ‘material entity’. Those natural – as contrasted with engineered, which here means: deliberately executed – units which do exist in the realm of occurrents are typically either parasitic on the existence of natural units on the continuant side, or they are fiat in nature. Thus we can count lives; we can count football games; we can count chemical reactions performed in experiments or in chemical manufacturing. We cannot count the processes taking place, for instance, in an episode of insect mating behavior.Even where natural units are identifiable, for example cycles in a cyclical process such as the beating of a heart or an organism’s sleep/wake cycle, the processes in question form a sequence with no discontinuities (temporal gaps) of the sort that we find for instance where billiard balls or zebrafish or planets are separated by clear spatial gaps. Lives of organisms are process units, but they too unfold in a continuous series from other, prior processes such as fertilization, and they unfold in turn in continuous series of post-life processes such as post-mortem decay. Clear examples of boundaries of processes are almost always of the fiat sort (midnight, a time of death as declared in an operating theater or on a death certificate, the initiation of a state of war)" xsd:string
property_value: IAO:0000602 "(iff (Process a) (and (Occurrent a) (exists (b) (properTemporalPartOf b a)) (exists (c t) (and (MaterialEntity c) (specificallyDependsOnAt a c t))))) // axiom label in BFO2 CLIF: [083-003] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/083-003"}
property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl
[Term]
id: BFO:0000016
name: disposition
is_a: BFO:0000017 ! realizable entity
property_value: BFO:0000179 "disposition" xsd:string
property_value: BFO:0000180 "Disposition" xsd:string
property_value: IAO:0000112 "an atom of element X has the disposition to decay to an atom of element Y" xsd:string
property_value: IAO:0000112 "certain people have a predisposition to colon cancer" xsd:string
property_value: IAO:0000112 "children are innately disposed to categorize objects in certain ways." xsd:string
property_value: IAO:0000112 "the cell wall is disposed to filter chemicals in endocytosis and exocytosis" xsd:string
property_value: IAO:0000116 "BFO 2 Reference: Dispositions exist along a strength continuum. Weaker forms of disposition are realized in only a fraction of triggering cases. These forms occur in a significant number of cases of a similar type." xsd:string
property_value: IAO:0000600 "b is a disposition means: b is a realizable entity & b’s bearer is some material entity & b is such that if it ceases to exist, then its bearer is physically changed, & b’s realization occurs when and because this bearer is in some special physical circumstances, & this realization occurs in virtue of the bearer’s physical make-up. (axiom label in BFO2 Reference: [062-002])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/062-002"}
property_value: IAO:0000601 "If b is a realizable entity then for all t at which b exists, b s-depends_on some material entity at t. (axiom label in BFO2 Reference: [063-002])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/063-002"}
property_value: IAO:0000602 "(forall (x t) (if (and (RealizableEntity x) (existsAt x t)) (exists (y) (and (MaterialEntity y) (specificallyDepends x y t))))) // axiom label in BFO2 CLIF: [063-002] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/063-002"}
property_value: IAO:0000602 "(forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/062-002"}
property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl
[Term]
id: BFO:0000017
name: realizable entity
def: "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances." []
is_a: BFO:0000020 ! specifically dependent continuant
property_value: BFO:0000179 "realizable" xsd:string
property_value: BFO:0000180 "RealizableEntity" xsd:string
property_value: IAO:0000112 "the disposition of this piece of metal to conduct electricity." xsd:string
property_value: IAO:0000112 "the disposition of your blood to coagulate" xsd:string
property_value: IAO:0000112 "the function of your reproductive organs" xsd:string
property_value: IAO:0000112 "the role of being a doctor" xsd:string
property_value: IAO:0000112 "the role of this boundary to delineate where Utah and Colorado meet" xsd:string
property_value: IAO:0000600 "To say that b is a realizable entity is to say that b is a specifically dependent continuant that inheres in some independent continuant which is not a spatial region and is of a type instances of which are realized in processes of a correlated type. (axiom label in BFO2 Reference: [058-002])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/058-002"}
property_value: IAO:0000601 "All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/060-002"}
property_value: IAO:0000602 "(forall (x t) (if (RealizableEntity x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (bearerOfAt y x t))))) // axiom label in BFO2 CLIF: [060-002] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/060-002"}
property_value: IAO:0000602 "(forall (x) (if (RealizableEntity x) (and (SpecificallyDependentContinuant x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (inheresIn x y)))))) // axiom label in BFO2 CLIF: [058-002] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/058-002"}
property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl
[Term]
id: BFO:0000020
name: specifically dependent continuant
def: "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." []
def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/050-003"}
is_a: BFO:0000002 ! continuant
property_value: BFO:0000179 "sdc" xsd:string
property_value: BFO:0000180 "SpecificallyDependentContinuant" xsd:string
property_value: IAO:0000112 "of one-sided specifically dependent continuants: the mass of this tomato" xsd:string
property_value: IAO:0000112 "of relational dependent continuants (multiple bearers): John’s love for Mary, the ownership relation between John and this statue, the relation of authority between John and his subordinates." xsd:string
property_value: IAO:0000112 "Reciprocal specifically dependent continuants: the function of this key to open this lock and the mutually dependent disposition of this lock: to be opened by this key" xsd:string
property_value: IAO:0000112 "the disposition of this fish to decay" xsd:string
property_value: IAO:0000112 "the function of this heart: to pump blood" xsd:string
property_value: IAO:0000112 "the mutual dependence of proton donors and acceptors in chemical reactions [79" xsd:string
property_value: IAO:0000112 "the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction" xsd:string
property_value: IAO:0000112 "the pink color of a medium rare piece of grilled filet mignon at its center" xsd:string
property_value: IAO:0000112 "the role of being a doctor" xsd:string
property_value: IAO:0000112 "the shape of this hole." xsd:string
property_value: IAO:0000112 "the smell of this portion of mozzarella" xsd:string
property_value: IAO:0000116 "Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc." xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000005", comment="per discussion with Barry Smith"}
property_value: IAO:0000602 "(iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/050-003"}
property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl
[Term]
id: BFO:0000023
name: role
def: "A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts." []
is_a: BFO:0000017 ! realizable entity
property_value: BFO:0000179 "role" xsd:string
property_value: BFO:0000180 "Role" xsd:string
property_value: IAO:0000112 "John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married." xsd:string
property_value: IAO:0000112 "the priest role" xsd:string
property_value: IAO:0000112 "the role of a boundary to demarcate two neighboring administrative territories" xsd:string
property_value: IAO:0000112 "the role of a building in serving as a military target" xsd:string
property_value: IAO:0000112 "the role of a stone in marking a property boundary" xsd:string
property_value: IAO:0000112 "the role of subject in a clinical trial" xsd:string
property_value: IAO:0000112 "the student role" xsd:string
property_value: IAO:0000116 "BFO 2 Reference: One major family of examples of non-rigid universals involves roles, and ontologies developed for corresponding administrative purposes may consist entirely of representatives of entities of this sort. Thus ‘professor’, defined as follows,b instance_of professor at t =Def. there is some c, c instance_of professor role & c inheres_in b at t.denotes a non-rigid universal and so also do ‘nurse’, ‘student’, ‘colonel’, ‘taxpayer’, and so forth. (These terms are all, in the jargon of philosophy, phase sortals.) By using role terms in definitions, we can create a BFO conformant treatment of such entities drawing on the fact that, while an instance of professor may be simultaneously an instance of trade union member, no instance of the type professor role is also (at any time) an instance of the type trade union member role (any more than any instance of the type color is at any time an instance of the type length).If an ontology of employment positions should be defined in terms of roles following the above pattern, this enables the ontology to do justice to the fact that individuals instantiate the corresponding universals – professor, sergeant, nurse – only during certain phases in their lives." xsd:string
property_value: IAO:0000600 "b is a role means: b is a realizable entity & b exists because there is some single bearer that is in some special physical, social, or institutional set of circumstances in which this bearer does not have to be& b is not such that, if it ceases to exist, then the physical make-up of the bearer is thereby changed. (axiom label in BFO2 Reference: [061-001])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/061-001"}
property_value: IAO:0000602 "(forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/061-001"}
property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl
[Term]
id: BFO:0000031
name: generically dependent continuant
def: "b is a generically dependent continuant = Def. b is a continuant that g-depends_on one or more other entities. (axiom label in BFO2 Reference: [074-001])" [] {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/074-001"}
is_a: BFO:0000002 ! continuant
property_value: BFO:0000179 "gdc" xsd:string
property_value: BFO:0000180 "GenericallyDependentContinuant" xsd:string
property_value: IAO:0000112 "The entries in your database are patterns instantiated as quality instances in your hard drive. The database itself is an aggregate of such patterns. When you create the database you create a particular instance of the generically dependent continuant type database. Each entry in the database is an instance of the generically dependent continuant type IAO: information content entity." xsd:string
property_value: IAO:0000112 "the pdf file on your laptop, the pdf file that is a copy thereof on my laptop" xsd:string
property_value: IAO:0000112 "the sequence of this protein molecule; the sequence that is a copy thereof in that protein molecule." xsd:string
property_value: IAO:0000602 "(iff (GenericallyDependentContinuant a) (and (Continuant a) (exists (b t) (genericallyDependsOnAt a b t)))) // axiom label in BFO2 CLIF: [074-001] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/074-001"}
property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl
[Term]
id: BFO:0000034
name: function
is_a: BFO:0000016 ! disposition
property_value: BFO:0000179 "function" xsd:string
property_value: BFO:0000180 "Function" xsd:string
property_value: IAO:0000112 "the function of a hammer to drive in nails" xsd:string
property_value: IAO:0000112 "the function of a heart pacemaker to regulate the beating of a heart through electricity" xsd:string
property_value: IAO:0000112 "the function of amylase in saliva to break down starch into sugar" xsd:string
property_value: IAO:0000116 "BFO 2 Reference: In the past, we have distinguished two varieties of function, artifactual function and biological function. These are not asserted subtypes of BFO:function however, since the same function – for example: to pump, to transport – can exist both in artifacts and in biological entities. The asserted subtypes of function that would be needed in order to yield a separate monoheirarchy are not artifactual function, biological function, etc., but rather transporting function, pumping function, etc." xsd:string
property_value: IAO:0000600 "A function is a disposition that exists in virtue of the bearer’s physical make-up and this physical make-up is something the bearer possesses because it came into being, either through evolution (in the case of natural biological entities) or through intentional design (in the case of artifacts), in order to realize processes of a certain sort. (axiom label in BFO2 Reference: [064-001])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/064-001"}
property_value: IAO:0000602 "(forall (x) (if (Function x) (Disposition x))) // axiom label in BFO2 CLIF: [064-001] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/064-001"}
property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl
[Term]
id: BFO:0000040
name: material entity
def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." []
is_a: BFO:0000004 ! independent continuant
property_value: BFO:0000179 "material" xsd:string
property_value: BFO:0000180 "MaterialEntity" xsd:string
property_value: IAO:0000111 "material entity" xsd:string
property_value: IAO:0000112 "a flame" xsd:string
property_value: IAO:0000112 "a forest fire" xsd:string
property_value: IAO:0000112 "a human being" xsd:string
property_value: IAO:0000112 "a hurricane" xsd:string
property_value: IAO:0000112 "a photon" xsd:string
property_value: IAO:0000112 "a puff of smoke" xsd:string
property_value: IAO:0000112 "a sea wave" xsd:string
property_value: IAO:0000112 "a tornado" xsd:string
property_value: IAO:0000112 "an aggregate of human beings." xsd:string
property_value: IAO:0000112 "an energy wave" xsd:string
property_value: IAO:0000112 "an epidemic" xsd:string
property_value: IAO:0000112 "the undetached arm of a human being" xsd:string
property_value: IAO:0000116 "BFO 2 Reference: Material entities (continuants) can preserve their identity even while gaining and losing material parts. Continuants are contrasted with occurrents, which unfold themselves in successive temporal parts or phases [60" xsd:string
property_value: IAO:0000116 "BFO 2 Reference: Object, Fiat Object Part and Object Aggregate are not intended to be exhaustive of Material Entity. Users are invited to propose new subcategories of Material Entity." xsd:string
property_value: IAO:0000116 "BFO 2 Reference: ‘Matter’ is intended to encompass both mass and energy (we will address the ontological treatment of portions of energy in a later version of BFO). A portion of matter is anything that includes elementary particles among its proper or improper parts: quarks and leptons, including electrons, as the smallest particles thus far discovered; baryons (including protons and neutrons) at a higher level of granularity; atoms and molecules at still higher levels, forming the cells, organs, organisms and other material entities studied by biologists, the portions of rock studied by geologists, the fossils studied by paleontologists, and so on.Material entities are three-dimensional entities (entities extended in three spatial dimensions), as contrasted with the processes in which they participate, which are four-dimensional entities (entities extended also along the dimension of time).According to the FMA, material entities may have immaterial entities as parts – including the entities identified below as sites; for example the interior (or ‘lumen’) of your small intestine is a part of your body. BFO 2.0 embodies a decision to follow the FMA here." xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ido.owl
property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
property_value: IAO:0000600 "A material entity is an independent continuant that has some portion of matter as proper or improper continuant part. (axiom label in BFO2 Reference: [019-002])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/019-002"}
property_value: IAO:0000601 "every entity of which a material entity is continuant part is also a material entity. (axiom label in BFO2 Reference: [021-002])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/021-002"}
property_value: IAO:0000601 "Every entity which has a material entity as continuant part is a material entity. (axiom label in BFO2 Reference: [020-002])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/020-002"}
property_value: IAO:0000602 "(forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt x y t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [021-002] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/021-002"}
property_value: IAO:0000602 "(forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt y x t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [020-002] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/020-002"}
property_value: IAO:0000602 "(forall (x) (if (MaterialEntity x) (IndependentContinuant x))) // axiom label in BFO2 CLIF: [019-002] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/019-002"}
property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl
[Term]
id: CL:0000000
name: cell
def: "A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane." [CARO:mah]
comment: The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one).
subset: ubprop:upper_level
xref: CALOHA:TS-2035
xref: FBbt:00007002
xref: FMA:68646
xref: GO:0005623
xref: KUPO:0000002
xref: MESH:D002477
xref: VHOG:0001533
xref: WBbt:0004017
xref: XAO:0003012
is_a: UBERON:0000061 ! anatomical structure
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: CL:0000211
name: electrically active cell
def: "A cell whose function is determined by the generation or the reception of an electric signal." [FB:ma]
is_a: CL:0000000 ! cell
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: CL:0000393
name: electrically responsive cell
def: "A cell whose function is determined by its response to an electric signal." [FB:ma]
is_a: CL:0000211 ! electrically active cell
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: CL:0000404
name: electrically signaling cell
def: "A cell that initiates an electrical signal and passes that signal to another cell." [FB:ma]
is_a: CL:0000211 ! electrically active cell
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: CL:0000540
name: neuron
def: "The basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system." [http://en.wikipedia.org/wiki/Neuron, MESH:D009474]
comment: These cells are also reportedly CD4-negative and CD200-positive. They are also capable of producing CD40L and IFN-gamma.
subset: general_cell_types_upper_slim
subset: human_reference_atlas
synonym: "nerve cell" EXACT []
xref: BTO:0000938
xref: CALOHA:TS-0683
xref: FBbt:00005106
xref: FMA:54527
xref: VHOG:0001483
xref: WBbt:0003679
is_a: CL:0000393 ! electrically responsive cell
is_a: CL:0000404 ! electrically signaling cell
is_a: CL:0002319 ! neural cell
property_value: foaf:depiction "https://www.swissbiopics.org/api/image/Neuron_cells.svg" xsd:anyURI
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
property_value: RO:0002175 NCBITaxon:9606
[Term]
id: CL:0002319
name: neural cell
def: "A cell that is part of the nervous system." [GOC:tfm, ISBN:0618947256]
xref: CALOHA:TS-2040
xref: FMA:70333
is_a: CL:0000000 ! cell
intersection_of: CL:0000000 ! cell
intersection_of: part_of UBERON:0001016 ! nervous system
relationship: part_of UBERON:0001016 ! nervous system
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
property_value: terms:contributor https://orcid.org/0000-0003-1980-3228
creation_date: 2010-09-15T01:34:57Z
[Term]
id: CL:0008028
name: visual system neuron
is_a: CL:0000540 ! neuron
intersection_of: CL:0000540 ! neuron
intersection_of: capable_of_part_of GO:0007601 ! visual perception
relationship: capable_of_part_of GO:0007601 ! visual perception
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
property_value: terms:contributor https://orcid.org/0000-0002-7073-9172
creation_date: 2017-07-09T19:12:36Z
[Term]
id: CL:0009001
name: compound eye retinal cell
def: "Any cell in the compound eye, a light sensing organ composed of ommatidia." []
xref: GOC:pr
xref: PMID:12021768
is_a: CL:0009004 ! retinal cell
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: CL:0009004
name: retinal cell
def: "Any cell in the retina, the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates." [GOC:pr]
subset: general_cell_types_upper_slim
xref: PMID:10702418
is_a: CL:0002319 ! neural cell
intersection_of: CL:0002319 ! neural cell
intersection_of: part_of UBERON:0005388 ! photoreceptor array
relationship: part_of UBERON:0005388 ! photoreceptor array
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0003008
name: system process
namespace: biological_process
def: "A multicellular organismal process carried out by any of the organs or tissues in an organ system. An organ system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a biological objective." [GOC:mtg_cardio]
synonym: "organ system process" EXACT []
is_a: GO:0032501 ! multicellular organismal process
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0007600
name: sensory perception
namespace: biological_process
def: "The series of events required for an organism to receive a sensory stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." [GOC:ai, GOC:dph]
subset: goslim_drosophila
xref: Wikipedia:Perception
is_a: GO:0050877 ! nervous system process
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0007601
name: visual perception
namespace: biological_process
def: "The series of events required for an organism to receive a visual stimulus, convert it to a molecular signal, and recognize and characterize the signal. Visual stimuli are detected in the form of photons and are processed to form an image." [GOC:ai]
synonym: "sense of sight" EXACT []
synonym: "sensory visual perception" EXACT []
synonym: "vision" EXACT []
xref: Wikipedia:Visual_perception
is_a: GO:0050953 ! sensory perception of light stimulus
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0008150
name: biological_process
namespace: biological_process
alt_id: GO:0000004
alt_id: GO:0007582
alt_id: GO:0044699
def: "A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence." [GOC:pdt]
comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this.
subset: goslim_candida
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_pombe
subset: goslim_yeast
synonym: "biological process" EXACT []
synonym: "physiological process" EXACT []
synonym: "single organism process" RELATED []
synonym: "single-organism process" RELATED []
xref: Wikipedia:Biological_process
is_a: BFO:0000015 ! process
property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24968" xsd:anyURI
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
created_by: jl
creation_date: 2012-09-19T15:05:24Z
[Term]
id: GO:0009314
name: response to radiation
namespace: biological_process
def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an electromagnetic radiation stimulus. Electromagnetic radiation is a propagating wave in space with electric and magnetic components. These components oscillate at right angles to each other and to the direction of propagation." [GOC:jl, Wikipedia:Electromagnetic_radiation]
comment: Note that 'radiation' refers to electromagnetic radiation of any wavelength.
synonym: "response to electromagnetic radiation stimulus" EXACT []
synonym: "response to radiation stimulus" EXACT []
is_a: GO:0009628 ! response to abiotic stimulus
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0009416
name: response to light stimulus
namespace: biological_process
def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a light stimulus, electromagnetic radiation of wavelengths classified as infrared, visible or ultraviolet light." [GOC:go_curators, ISBN:0582227089]
subset: goslim_plant
is_a: GO:0009314 ! response to radiation
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0009581
name: detection of external stimulus
namespace: biological_process
def: "The series of events in which an external stimulus is received by a cell and converted into a molecular signal." [GOC:hb]
synonym: "perception of external stimulus" RELATED []
is_a: GO:0009605 ! response to external stimulus
is_a: GO:0051606 ! detection of stimulus
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0009582
name: detection of abiotic stimulus
namespace: biological_process
def: "The series of events in which an (non-living) abiotic stimulus is received by a cell and converted into a molecular signal." [GOC:hb]
synonym: "perception of abiotic stimulus" RELATED []
is_a: GO:0009628 ! response to abiotic stimulus
is_a: GO:0051606 ! detection of stimulus
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0009583
name: detection of light stimulus
namespace: biological_process
def: "The series of events in which a light stimulus (in the form of photons) is received and converted into a molecular signal." [GOC:go_curators]
synonym: "detection of light" EXACT []
synonym: "perception of light" RELATED []
is_a: GO:0009416 ! response to light stimulus
is_a: GO:0009581 ! detection of external stimulus
is_a: GO:0009582 ! detection of abiotic stimulus
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0009584
name: detection of visible light
namespace: biological_process
def: "The series of events in which a visible light stimulus is received by a cell and converted into a molecular signal. A visible light stimulus is electromagnetic radiation that can be perceived visually by an organism; for organisms lacking a visual system, this can be defined as light with a wavelength within the range 380 to 780 nm." [GOC:go_curators, ISBN:0198506732]
synonym: "perception of visible light" RELATED []
is_a: GO:0009583 ! detection of light stimulus
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0009605
name: response to external stimulus
namespace: biological_process
def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus." [GOC:hb]
comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.
subset: gocheck_do_not_manually_annotate
subset: goslim_drosophila
subset: goslim_plant
synonym: "response to environmental stimulus" EXACT []
is_a: GO:0050896 ! response to stimulus
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0009628
name: response to abiotic stimulus
namespace: biological_process
def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (not derived from living organisms) stimulus." [GOC:hb]
comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.
subset: gocheck_do_not_manually_annotate
subset: goslim_metagenomics
subset: goslim_plant
synonym: "response to abiotic stress" NARROW []
is_a: GO:0050896 ! response to stimulus
property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/16572" xsd:anyURI
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0032501
name: multicellular organismal process
namespace: biological_process
alt_id: GO:0044707
alt_id: GO:0050874
def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb]
subset: gocheck_do_not_annotate
subset: goslim_pir
synonym: "organismal physiological process" EXACT []
synonym: "single-multicellular organism process" RELATED []
is_a: GO:0008150 ! biological_process
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
property_value: RO:0002161 NCBITaxon:2
property_value: RO:0002161 NCBITaxon:2157
property_value: RO:0002161 NCBITaxon:4896
property_value: RO:0002161 NCBITaxon:4932
created_by: jl
creation_date: 2012-09-19T16:07:47Z
[Term]
id: GO:0050877
name: nervous system process
namespace: biological_process
def: "A organ system process carried out by any of the organs or tissues of neurological system." [GOC:ai, GOC:mtg_cardio]
subset: goslim_agr
subset: goslim_chembl
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_pir
synonym: "neurological system process" EXACT []
synonym: "neurophysiological process" EXACT []
synonym: "pan-neural process" RELATED []
is_a: GO:0003008 ! system process
property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/13824" xsd:anyURI
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0050896
name: response to stimulus
namespace: biological_process
alt_id: GO:0051869
def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." [GOC:ai, GOC:bf]
comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.
subset: gocheck_do_not_manually_annotate
subset: goslim_agr
subset: goslim_flybase_ribbon
subset: goslim_mouse
subset: goslim_pir
subset: prokaryote_subset
synonym: "physiological response to stimulus" EXACT []
is_a: GO:0008150 ! biological_process
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0050953
name: sensory perception of light stimulus
namespace: biological_process
def: "The series of events required for an organism to receive a sensory light stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." [GOC:ai]
is_a: GO:0007600 ! sensory perception
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: GO:0051606
name: detection of stimulus
namespace: biological_process
def: "The series of events in which a stimulus is received by a cell or organism and converted into a molecular signal." [GOC:add, GOC:ai, GOC:dph, GOC:mah]
subset: goslim_pir
synonym: "perception of stimulus" RELATED []
synonym: "stimulus detection" EXACT []
synonym: "stimulus sensing" RELATED []
is_a: GO:0050896 ! response to stimulus
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/uberon_import.owl
[Term]
id: IAO:0000027
name: data item
def: "An information content entity that is intended to be a truthful statement about something (modulo, e.g., measurement precision or other systematic errors) and is constructed/acquired by a method which reliably tends to produce (approximately) truthful statements." []
is_a: IAO:0000030 ! information content entity
property_value: IAO:0000111 "data item" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/iao.owl
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: IAO:0000030
name: information content entity
def: "A generically dependent continuant that is about some thing." []
is_a: BFO:0000031 ! generically dependent continuant
property_value: IAO:0000111 "information content entity" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/iao.owl
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: IDO:0000504
name: infectious disorder
def: "An infection that is clinically abnormal." []
is_a: OGMS:0000045 ! disorder
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ido.owl
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: IDO:0000586
name: infection
def: "A part of an extended organism that itself has as part a population of one or more infectious agents and that (1) exists as a result of processes initiated by members of the infectious agent population and is (2) clinically abnormal in virtue of the presence of this infectious agent population, or (3) has a disposition to bring clinical abnormality to immunocompetent organisms of the same Species as the host (the organism corresponding to the extended organism) through transmission of a member or offspring of a member of the infectious agent population." []
is_a: BFO:0000040 ! material entity
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ido.owl
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: NCBITaxon:9606
name: Homo sapiens
is_a: OBI:0100026 ! organism
property_value: IAO:0000111 "Homo sapiens" xsd:string
property_value: IAO:0000118 "human being" xsd:string
property_value: IAO:0000412 http://purl.obolibrary.org/obo/ncbitaxon.owl
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/omrse_import.owl
[Term]
id: OBI:0000047
name: processed material
def: "Is a material entity that is created or changed during material processing." []
is_a: BFO:0000040 ! material entity
property_value: IAO:0000111 "processed material" xsd:string
property_value: IAO:0000112 "Examples include gel matrices, filter paper, parafilm and buffer solutions, mass spectrometer, tissue samples" xsd:string
property_value: IAO:0000114 IAO:0000122
property_value: IAO:0000117 "PERSON: Alan Ruttenberg" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/obi_import.owl
[Term]
id: OBI:0000245
name: organization
def: "An entity that can bear roles, has members, and has a set of organization rules. Members of organizations are either organizations themselves or individual people. Members can bear specific organization member roles that are determined in the organization rules. The organization rules also determine how decisions are made on behalf of the organization by the organization members." []
is_a: BFO:0000040 ! material entity
property_value: IAO:0000111 "organization" xsd:string
property_value: IAO:0000112 "PMID: 16353909.AAPS J. 2005 Sep 22;7(2):E274-80. Review. The joint food and agriculture organization of the United Nations/World Health Organization Expert Committee on Food Additives and its role in the evaluation of the safety of veterinary drug residues in foods." xsd:string
property_value: IAO:0000114 IAO:0000122
property_value: IAO:0000116 "BP: The definition summarizes long email discussions on the OBI developer, roles, biomaterial and denrie branches. It leaves open if an organization is a material entity or a dependent continuant, as no consensus was reached on that. The current placement as material is therefore temporary, in order to move forward with development. Here is the entire email summary, on which the definition is based:\n\n1) there are organization_member_roles (president, treasurer, branch\neditor), with individual persons as bearers\n\n2) there are organization_roles (employer, owner, vendor, patent holder)\n\n3) an organization has a charter / rules / bylaws, which specify what roles\nthere are, how they should be realized, and how to modify the\ncharter/rules/bylaws themselves.\n\nIt is debatable what the organization itself is (some kind of dependent\ncontinuant or an aggregate of people). This also determines who/what the\nbearer of organization_roles' are. My personal favorite is still to define\norganization as a kind of 'legal entity', but thinking it through leads to\nall kinds of questions that are clearly outside the scope of OBI.\n\nInterestingly enough, it does not seem to matter much where we place\norganization itself, as long as we can subclass it (University, Corporation,\nGovernment Agency, Hospital), instantiate it (Affymetrix, NCBI, NIH, ISO,\nW3C, University of Oklahoma), and have it play roles.\n\nThis leads to my proposal: We define organization through the statements 1 -\n3 above, but without an 'is a' statement for now. We can leave it in its\ncurrent place in the is_a hierarchy (material entity) or move it up to\n'continuant'. We leave further clarifications to BFO, and close this issue\nfor now." xsd:string
property_value: IAO:0000117 "PERSON: Alan Ruttenberg" xsd:string
property_value: IAO:0000117 "PERSON: Bjoern Peters" xsd:string
property_value: IAO:0000117 "PERSON: Philippe Rocca-Serra" xsd:string
property_value: IAO:0000117 "PERSON: Susanna Sansone" xsd:string
property_value: IAO:0000119 "GROUP: OBI" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/obi_import.owl
[Term]
id: OBI:0000968
name: device
def: "A material entity that is designed to perform a function in a scientific investigation, but is not a reagent." []
is_a: OBI:0000047 ! processed material
property_value: IAO:0000111 "device" xsd:string
property_value: IAO:0000112 "A voltmeter is a measurement device which is intended to perform some measure function." xsd:string
property_value: IAO:0000112 "An autoclave is a device that sterlizes instruments or contaminated waste by applying high temperature and pressure." xsd:string
property_value: IAO:0000114 IAO:0000122
property_value: IAO:0000116 "2012-12-17 JAO: In common lab usage, there is a distinction made between devices and reagents that is difficult to model. Therefore we have chosen to specifically exclude reagents from the definition of \"device\", and are enumerating the types of roles that a reagent can perform.\n\n2013-6-5 MHB: The following clarifications are outcomes of the May 2013 Philly Workshop. Reagents are distinguished from devices that also participate in scientific techniques by the fact that reagents are chemical or biological in nature and necessarily participate in some chemical interaction or reaction during the realization of their experimental role. By contrast, devices do not participate in such chemical reactions/interactions. Note that there are cases where devices use reagent components during their operation, where the reagent-device distinction is less clear. For example:\n\n(1) An HPLC machine is considered a device, but has a column that holds a stationary phase resin as an operational component. This resin qualifies as a device if it participates purely in size exclusion, but bears a reagent role that is realized in the running of a column if it interacts electrostatically or chemically with the evaluant. The container the resin is in (“the column”) considered alone is a device. So the entire column as well as the entire HPLC machine are devices that have a reagent as an operating part.\n\n(2) A pH meter is a device, but its electrode component bears a reagent role in virtue of its interacting directly with the evaluant in execution of an assay.\n\n(3) A gel running box is a device that has a metallic lead as a component that participates in a chemical reaction with the running buffer when a charge is passed through it. This metallic lead is considered to have a reagent role as a component of this device realized in the running of a gel.\n\nIn the examples above, a reagent is an operational component of a device, but the device itself does not realize a reagent role (as bearing a reagent role is not transitive across the part_of relation). In this way, the asserted disjointness between a reagent and device holds, as both roles are never realized in the same bearer during execution of an assay." xsd:string
property_value: IAO:0000117 "PERSON: Helen Parkinson" xsd:string
property_value: IAO:0000118 "instrument" xsd:string
property_value: IAO:0000119 "OBI development call 2012-12-17." xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/obi_import.owl
[Term]
id: OBI:0100026
name: organism
def: "A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs." []
is_a: BFO:0000040 ! material entity
property_value: IAO:0000111 "organism" xsd:string
property_value: IAO:0000112 "animal" xsd:string
property_value: IAO:0000112 "fungus" xsd:string
property_value: IAO:0000112 "plant" xsd:string
property_value: IAO:0000112 "virus" xsd:string
property_value: IAO:0000114 IAO:0000121
property_value: IAO:0000114 IAO:0000122
property_value: IAO:0000116 "10/21/09: This is a placeholder term, that should ideally be imported from the NCBI taxonomy, but the high level hierarchy there does not suit our needs (includes plasmids and 'other organisms')" xsd:string
property_value: IAO:0000116 "13-02-2009:\nOBI doesn't take position as to when an organism starts or ends being an organism - e.g. sperm, foetus.\nThis issue is outside the scope of OBI." xsd:string
property_value: IAO:0000117 "GROUP: OBI Biomaterial Branch" xsd:string
property_value: IAO:0000119 "WEB: http://en.wikipedia.org/wiki/Organism" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/omrse_import.owl
[Term]
id: OGMS:0000014
name: clinical finding
def: "A representation that is either the output of a clinical history taking or a physical examination or an image finding, or some combination thereof." []
is_a: OGMS:0000123 ! clinical data item
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2010-07-19T10:18:02Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000015
name: clinical history
def: "A series of statements representing health-relevant qualities of a patient and of a patient's family." []
is_a: OGMS:0000123 ! clinical data item
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2010-07-19T10:18:59Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000016
name: clinical picture
def: "A representation of clinically significant bodily components, dispositions, and/or bodily processes of a human being that is inferred from relevant clinical findings." []
is_a: OGMS:0000123 ! clinical data item
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2010-07-19T10:20:20Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000017
name: image finding
def: "A representation of an image that supports an inference to an assertion about some quality of a patient." []
is_a: OGMS:0000014 ! clinical finding
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T10:21:10Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000018
name: laboratory finding
def: "A representation of a quality of a specimen that is the output of a laboratory test and that can support an inference to an assertion about some quality of the patient." []
is_a: OGMS:0000014 ! clinical finding
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T10:21:58Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000030
name: predisposition to disease of type X
def: "A disposition in an organism that constitutes an increased risk of the organism's subsequently developing the disease X." []
is_a: BFO:0000016 ! disposition
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T11:20:25Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000031
name: disease
def: "A disposition (i) to undergo pathological processes that (ii) exists in an organism because of one or more disorders in that organism." []
is_a: BFO:0000016 ! disposition
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T11:21:20Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000032
name: homeostasis
is_a: BFO:0000016 ! disposition
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T11:22:01Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000033
name: genetic predisposition to disease of type X
def: "A predisposition to disease of type X whose physical basis is a constitutional abnormality in an organism's genome. This abnormality is the physical basis for the increased risk of acquiring the disease X." []
is_a: OGMS:0000030 ! predisposition to disease of type X
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T11:23:07Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000034
name: acquired genetic disease
def: "A disease whose physical basis is an acquired genetic disorder." []
is_a: OGMS:0000031 ! disease
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T11:24:05Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000035
name: constitutional genetic disease
def: "A disease whose physical basis is a constitutional genetic disorder." []
is_a: OGMS:0000031 ! disease
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T11:24:59Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000037
name: abnormal homeostasis
def: "Homeostasis that is clinically abnormal for an organism of a given type and age in a given environment." []
is_a: OGMS:0000032 ! homeostasis
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T11:26:44Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000038
name: normal homeostasis
def: "Homeostasis of a type that is not clinically abnormal." []
is_a: OGMS:0000032 ! homeostasis
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T11:27:28Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000045
name: disorder
def: "A material entity which is clinically abnormal and part of an extended organism. Disorders are the physical basis of disease." []
is_a: BFO:0000040 ! material entity
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T11:39:44Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000046
name: epigenetic disorder
def: "A disorder whose etiology involves (1) a modification to the patient's genomic DNA which leads to alterations in the normal expression pattern of the genome, but is (2) not a change in the nucleotide sequence." []
is_a: OGMS:0000045 ! disorder
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T11:40:27Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000047
name: genetic disorder
def: "A disorder whose etiology involves an abnormality in the nucleotide sequence of an organism's genome." []
is_a: OGMS:0000045 ! disorder
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T11:41:14Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000050
name: acquired genetic disorder
def: "A genetic disorder acquired by a single cell in an organism that leads to a population of cells within the organism bearing the disorder." []
is_a: OGMS:0000047 ! genetic disorder
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T11:43:09Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000051
name: constitutional genetic disorder
def: "A genetic disorder inherited during conception that is part of all cells in the organism." []
is_a: OGMS:0000047 ! genetic disorder
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T11:43:44Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000073
name: diagnosis
def: "The representation of a conclusion of a diagnostic process." []
is_a: OGMS:0000123 ! clinical data item
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-06-23T12:42:23Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000078
name: pathological anatomical structure
def: "An anatomical structure (FMA) is pathological whenever (1) it has come into being as a result of changes in some pre-existing canonical anatomical structure, (2) through processes other than the expression of the normal complement of genes of an organism of the given type, and (3) is predisposed to have health-related consequences for the organism in question manifested by symptoms and signs." []
is_a: BFO:0000040 ! material entity
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://ontology.buffalo.edu/bio/ISMB/ISMB_Bio-ontologies.pdf" xsd:string
property_value: IAO:0000232 "creation date: 2009-07-13T02:14:05Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000083
name: physical examination finding
def: "TODO: Define." []
is_a: OGMS:0000014 ! clinical finding
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000119 "http://code.google.com/p/ogms/issues/detail?id=26" xsd:string
property_value: IAO:0000232 "creation date: 2009-11-24T04:51:11Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000089
name: congenital disorder
def: "A structurally anomalous part of an organism acquired during fetal development and present at birth (but not necessarily hereditary) which is hypothesized to be harmful for the organism." []
is_a: BFO:0000040 ! material entity
property_value: IAO:0000117 "Albert Goldfain" xsd:string
property_value: IAO:0000118 "congenital malformation" xsd:string
property_value: IAO:0000119 "http://code.google.com/p/ogms/issues/detail?id=28" xsd:string
property_value: IAO:0000232 "creation date: 2010-03-31T04:51:11Z" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000102
name: injury
def: "A disorder that involves some structural damage that is immediately caused by a catastrophic external force." []
is_a: OGMS:0000045 ! disorder
property_value: IAO:0000116 "At the scale of organism (as opposed to the cellular scale or the population scale), an injury is typically the result of a catastrophic event. Consider the implications of making 'injury' a subtype of 'disorder'.\n\nNote: Adopted subtype of disorder, and injury can occur at the scale of organism down to cellular level." xsd:string
property_value: IAO:0000117 "Albert Goldfain\nSagar Jain" xsd:string
property_value: IAO:0000119 "http://groups.google.com/group/ogms-discuss/browse_thread/thread/ca0ad373f27774c5\n\nOGMS call adoption- 16 SEPT 2015\nhttps://docs.google.com/document/d/1iiV1-fTS7BUUSzDw3N_Afx42698YWf54-FOTY2NkAxo/edit" xsd:string
property_value: IAO:0000232 "creation date: 2011-09-20T09:57:44Z\nedited date: 30 SEPT 2015" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000123
name: clinical data item
def: "A data item that is about a patient and is the specified output of a health care process assay or diagnostic process" []
is_a: IAO:0000027 ! data item
property_value: IAO:0000232 "creation date: 2018-11-27" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OGMS:0000146
name: tissue disorder
def: "A disorder of some macroscopic part of a tissue" []
is_a: OGMS:0000045 ! disorder
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/ogms_import.owl
[Term]
id: OMRSE:00000007
name: gender role
def: "A human social role borne by a human being being realized in behaviour which is considered socially appropriate for individuals of a specific sex in the context of a specific culture." []
is_a: OMRSE:00000049 ! organism role
property_value: IAO:0000117 "Mathias Brochhausen" xsd:string
property_value: IAO:0000119 "http://en.wikipedia.org/wiki/Gender_role" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/omrse_import.owl
[Term]
id: OMRSE:00000008
name: male gender role
def: "A gender role borne by a human being that is realized in behaviour which is considered socially appropriate for individuals of the male sex in the context of the culture in question." []
is_a: OMRSE:00000007 ! gender role
relationship: RO:0000052 OBI:0100026 ! characteristic of organism
property_value: IAO:0000117 "Mathias Brochhausen" xsd:string
property_value: IAO:0000118 "male gender" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/omrse_import.owl
[Term]
id: OMRSE:00000009
name: female gender role
def: "A gender role borne by a human being that is realized in behaviour which is considered socially appropriate for individuals of the female sex in the context of the culture in question." []
is_a: OMRSE:00000007 ! gender role
relationship: RO:0000052 OBI:0100026 ! characteristic of organism
property_value: IAO:0000117 "Mathias Brochhausen" xsd:string
property_value: IAO:0000118 "female gender" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/omrse_import.owl
[Term]
id: OMRSE:00000010
name: human health care role
def: "A role in human social processes that is realized by health care processes such as seeking or providing treatment for disease and injury, diagnosing disease and injury, or undergoing diagnosis. " []
is_a: OMRSE:00002072 ! role in human social processes
property_value: IAO:0000117 "Mathias Brochhausen" xsd:string
property_value: IAO:0000117 "William R. Hogan" xsd:string
property_value: IAO:0000118 "health care role" xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/omrse_import.owl
[Term]
id: OMRSE:00000011
name: patient role
def: "A role borne by an organism and that is realized by presenting to a health care provider in a clinical encounter." []
comment: In order to avoid the presumption of the formal structures and institutions of Western civilization, bearing a patient role does not entail that the organism presents at an official place of business, with an organization formally and legally registered with various gov't entities, with a person endowed by the gov't with certain certifications.
is_a: OMRSE:00000010 ! human health care role
is_a: OMRSE:00000049 ! organism role
property_value: IAO:0000117 "Amanda Hicks" xsd:string
property_value: IAO:0000117 "Mathias Brochhausen" xsd:string
property_value: IAO:0000118 "patient" xsd:string
property_value: IAO:0000119 "CAFE domain expert working group." xsd:string
property_value: isDefinedBy neural-electronic-interface-ontology:neio/imports/omrse_import.owl
[Term]
id: OMRSE:00000030
name: human patient role
def: "A patient role that inheres in a human being." []
is_a: OMRSE:00000011 ! patient role
is_a: OMRSE:00000050 ! Homo sapiens role
intersection_of: OMRSE:00000011 ! patient role
intersection_of: RO:0000052 NCBITaxon:9606 ! characteristic of Homo sapiens